Pyrazinoic acid conjugates and hybrid conjugates

ABSTRACT

Pyrazinamide (PZA) conjugates and hybrids are provided herein. The PZA conjugates are useful for treating bacterial infections. In one embodiment, the PZA conjugates are useful for treating tuberculosis.

CROSS-REFERENCE TO RELATED APPLICATIONS

This application is a divisional application of U.S. patent applicationSer. No. 16/674,651 filed on Nov. 5, 2019, which claims priority to andbenefit of U.S. Provisional Application No. 62/756,430 filed on Nov. 6,2018, each of which is incorporated by reference in its entirety.

TECHNICAL FIELD OF THE INVENTION

Aspects of the invention are generally directed to antibioticcompositions and methods of their use.

BACKGROUND OF THE INVENTION

Tuberculosis (TB) is a bacterial pathogen caused by Mycobacteriumtuberculosis, which is known to cause pulmonary infection and to becomeextremely pervasive within the lungs. TB is considered to be one of theworld's deadliest communicable diseases because of its high virulenceand the ability of M. tuberculosis to enter into a dormant state, thensubsequently undergo reactivation. Pyrazinamide (PZA) is a first-lineantituberculosis prodrug that is often used in combinational therapywith drugs such as isoniazide, ethambutol, streptomycin, and rifampicin.

PZA is perceived to inhibit vital ribosomal proteins after beingconverted into its active constituent, pyrazinoic acid (POA), by thetuberculosis enzyme, pyrazinamidase (PZAase) (FIG. 1A). It may lower thepH of the area surrounding M. tuberculosis to such an extent that theorganism is unable to grow. Due to its low lipophilicity, POA cannot beabsorbed by the gastrointestinal tract. Fortunately, the drug can beabsorbed in the pyrazinamide configuration.

One of the drawbacks of using PZA to treat TB is that it inhibitsprotein synthesis. With prolonged administration of the recommendeddose, harmful side effects such as hepatitis, acute hypertension,thrombocytopenia, and gastrointestinal discomfort have been reported. Toovercome these issues, several molecular hybridization approaches havebeen reported for the development of potential antitubercular agents.Most hybridized structures include clinically used drugs such asrifamycin, ethambutol and isoniazid coupled with other hydrophobicstructures such as cinnamic acid derivatives. Unfortunately the mostpromising prodrugs of POA are not stable.

Therefore, it is an object of the invention to provide improved prodrugsof POA methods of their use.

SUMMARY OF THE INVENTION

Pyrazinamide (PZA) conjugates and hybrids are provided herein. The PZAconjugates are useful for treating infections, for example bacterialinfections. In one embodiment the PZA conjugates are used to treattuberculosis. An exemplary PZA conjugate has the generic structure

wherein:

R₁ is alkyl, alkenyl, alkynyl, aryl, or heteroaryl having between C₁ andC₃₀ carbon atoms, and

R₂ is carboxylic acid, nicotinic acid, or derivatives thereof.

In one embodiment, R₁ is is CH₂CH(CH₃)₂, CH(CH₃)₂, CH(CH₂CH₃)CH₃,CH₂CH₂SCH₃, CH₂Ph, or CH₂-indoyl. In one embodiment, R₂ is isoniazid orethionamide.

Another embodiment provides a PZA conjugate having a structure accordingto any one of the following:

or an isolated optical isomer or an isolate isomer thereof.

Yet another embodiment provides pharmaceutical compositions includingthe disclosed PZA conjugates and hybrids. The pharmaceutical compositioncan be formulated for oral administration. In another embodiment, thepharmaceutical composition additionally includes a pharmaceuticallyacceptable excipient.

Also disclosed is a method for treating a bacterial infection in asubject in need thereof by administering to the subject an effectiveamount of a pharmaceutical composition including at least one of thedisclosed PZA conjugates and hybrids. In one embodiment, the bacterialinfection is tuberculosis. In another embodiment, the bacterialinfection is cause by one or more bacteria selected from the groupconsisting of Mycobacterium marinum, Mycobacterium fortuitum,Mycobacterium tuberculosis, Staphylococcus aureus, Enterococcusfaecalis, Klebsiella pneumonia, Proteus vulgaris, Pseudomonasaeruginosa, and Proteus vulgaris. In one embodiment, the composition isadministered to the subject according to a regimen selected from 7 daysper week for 8 weeks, 5 days per week for 8 weeks, 3 times per week for7 weeks, or 7 days per week for 2 weeks then twice weekly for 6 weeks.In some embodiments, a second therapeutic is jointly administered to thesubject serially or in combination or alternation with the pyrazinamideconjugate.

BRIEF DESCRIPTION OF THE DRAWINGS

FIG, 1A is a schematic illustrating the hydrolysis of PZA into itsactive constituent pyrazinoic acid.

FIG. 1B is a schematic illustrating the series of reactions that lead tothe activation of isoniazid.

FIG. 2 is a schematic illustrating the synthesis of hybrid conjugates ofpyrazinoic acid by coupling amino acid and isoniazid using benzotriazolechemistry.

FIG. 3 is a BMLR-QSAR model plot of correlations representing theobserved vs. predicted log(MIC, mM) values for the tested compoundsagainst Mycobacterium marinum.

FIG. 4 is a bar graph showing observed and estimated activity MIC valuesfor the tested compounds against Mycobacterium marinum according to theBMLR-QSAR model.

FIG. 5 is a BMLR-QSAR model plot of correlations representing theobserved vs. predicted log(MIC, mM) values for the tested compoundsagainst Mycobacterium fortuitum.

FIG. 6 is a bar graph showing the observed and estimated activity MICvalues for the tested compounds against Mycobacterium fortuitumaccording to the BMLR-QSAR model.

FIGS. 7A and 7B are illustrations showing the constraint distances (FIG.7A; HBA-1-HBA-2=4.800, HBA-1-HBD=3.026, HBA-2-HBD=4.909 Å) andconstraint angles (FIG. 7B; HBA-1-HBA-2-HBD=36.29°) of the generated3D-pharmacophore for the synthesized bio-active compounds againstMycobacterium marinum which contains two hydrogen bonding acceptors(HBA-1, HBA-2) and one hydrogen bonding donor (HBD).

FIGS. 8A-8K are illustrations showing the 3D-pharmacophore mapped on thesynthesized bio-active compounds against Mycobacterium marinum (FIG.8A=PZA; FIG. 8B=INH; FIG. 8C=PZA-Leu-OH; FIG. 8D=PZA-Leu-INH; FIG.8E=PZA-Val-INH; FIG. 8F=PZA-Ile-INH; FIG. 8G=PZA-Met-INH; FIG.8H=PZA-Phe-INH; FIG. 81 =PZA-Trp-INH; FIG. 8J=PZA-INH; FIG. 8K=Iso-INH).

FIGS. 9A-9B are illustrations showing constraint distances (FIG. 9A;HBD-1-HBD-2=8.500, HBD-1-HBA=4.271, HBD-2-HBA=5.844 Å) and constraintangles (FIG. 9B; HBD-1-HBD-2-HBA=27.45°) of the generated3D-pharmacophore for the synthesized bio-active compounds againstMycobacterium fortuitum which contains two hydrogen bonding donors(HBD-1, HBD-2) and one hydrogen bonding acceptor (HBA).

FIGS. 10A-10K are illustrations showing the 3D-pharmacophore mapped onthe synthesized bio-active compounds against Mycobacterium fortuitum(FIG. 10A=PZA; FIG. 10B=INH; FIG. 10C=PZA-Leu-OH; FIG. 10D=PZA-Leu-INH;FIG. 10E=PZA-Val-INH; FIG. 10F=PZA-Ile-INH; FIG. 10G=PZA-Met-INH; FIG.10H=PZA-Phe-INH; FIG. 10I=PZA-Trp-INH; FIG. 10J=PZA-INH; FIG.10K=Iso-INH).

FIG. 11 is a schematic showing a general approach to producing PZAconjugates.

FIG. 12A is the 1H NMR of POA-L-Val-INH.

FIG. 12B is the 13C NMR of POA-L-Val-INH.

DETAILED DESCRIPTION OF THE INVENTION I. Definitions

The use of the terms “a,” “an,” “the,” and similar referents in thecontext of describing the presently claimed invention (especially in thecontext of the claims) are to be construed to cover both the singularand the plural, unless otherwise indicated herein or clearlycontradicted by context.

Recitation of ranges of values herein are merely intended to serve as ashorthand method of referring individually to each separate valuefalling within the range, unless otherwise indicated herein, and eachseparate value is incorporated into the specification as if it wereindividually recited herein.

Use of the term “about” is intended to describe values either above orbelow the stated value in a range of approx. +/−10%; in otherembodiments the values may range in value either above or below thestated value in a range of approx. +/−5%; in other embodiments thevalues may range in value either above or below the stated value in arange of approx. +/−2%; in other embodiments the values may range invalue either above or below the stated value in a range of approx.+/−1%. The preceding ranges are intended to be made clear by context,and no further limitation is implied. All methods described herein canbe performed in any suitable order unless otherwise indicated herein orotherwise clearly contradicted by context. The use of any and allexamples, or exemplary language (e.g., “such as”) provided herein, isintended merely to better illuminate the invention and does not pose alimitation on the scope of the invention unless otherwise claimed. Nolanguage in the specification should be construed as indicating anynon-claimed element as essential to the practice of the invention.

The term, “alkyl,” as used herein, refers to the radical of saturated orunsaturated aliphatic groups, including straight-chain alkyl, alkenyl,or alkynyl groups, branched-chain alkyl, alkenyl, or alkynyl groups,cycloalkyl, cycicoalkenyl, cycloalkynyl groups, alkyl substitutedcycloalkyl, cycloalkenyl, or cycloalkynyl groups, and cycloalkylsubstituted alkyl, alkenyl, or alkynyl groups. Unless otherwiseindicated, a straight chain or branched chain alkyl has 30 or fewercarbon atoms in its backbone, preferably 20 or fewer, and morepreferably 10 or fewer.

The term, “alkyl,” also includes one or more substitutions at one ormore carbon atoms of the hydrocarbon radical as well as heteroalkyls.Suitable substituents include, but are not limited to, halogens, such asfluorine, chlorine, bromine, or iodine; hydroxyl; —NR₁R_(2,) wherein R₁and R₂ are independently hydrogen, alkyl, or aryl, and wherein thenitrogen atom is optionally quaternized; —SR, wherein R is hydrogen,alkyl, or aryl; —CN; —NO₂; —COOH; carboxylate; —COR, —COOR, or—CONR_(2,) wherein R is hydrogen, alkyl, or aryl; azide, aralkyl,alkoxyl, imino, phosphonate, phosphinate, silyl, ether, sulfonyl,sulfonamido, heterocyclic, aromatic or heteroaromatic moieties, —CF3;—CN; —NCOCOCH₂CH₂; —NCOCOCHCH; —NCS; and combinations thereof.

The terms “alkenyl” and “alkynyl”, as used herein, refer to unsaturatedaliphatic groups analogous in length and possible substitution to thealkyls described above, but that contain at least one double or triplebond respectively.

The term “aryl” refers to a mono- or multi-cyclic aromatic radicalhaving in the range of 6 up to 30 carbon atoms such as phenyl, naphthyl,tetrahydronapthyl, indanyl, and biphenyl.

The term, “heteroaryl,” as used herein, refers to straight or branchedchain, or cyclic carbon-containing radicals, or combinations thereof,having 3 to 30 carbon atoms where one or more of the carbon atoms arereplaced by heteroatoms. Suitable heteroatoms include, but are notlimited to, O, N, Si, P and S, where the nitrogen, phosphorous andsulfur atoms are optionally oxidized, and the nitrogen heteroatom isoptionally quaternized. One of the rings may also be aromatic. Examplesof heterocyclic and heteroaromatic rings include, but are not limitedto, benzimidazolyl, benzofuranyl, benzothiofuranyl, benzothiophenyl,benzoxazolyl, benzoxazolinyl, benzthiazolyl, benztriazolyl,benztetrazolyl, benzisoxazolyl, benzisothiazolyl, benzimidazolinyl,carbazolyl, 4aH-carbazolyl, carbolinyl, chromanyl, chromenyl,cinnolinyl, decahydroquinolinyl, 2H,6H-1,5,2-dithiazinyl,dihydrofuro[2,3 -b]tetrahydrofuran, furanyl, furazanyl, imidazolidinyl,imidazolinyl, imidazolyl, 1H-indazolyl, indolenyl, indolinyl,indolizinyl, indolyl, 3H-indolyl, isatinoyl, isobenzofuranyl,isochromanyl, isoindazolyl, isoindolinyl, isoindolyl, isoquinolinyl,isothiazolyl, isoxazolyl, methylenedioxyphenyl, morpholinyl,naphthyridinyl, octahydroisoquinolinyl, oxadiazolyl, 1,2,3-oxadiazolyl,1,2,4-oxadiazolyl, 1,2,5-oxadiazolyl, 1,3,4-oxadiazolyl, oxazolidinyl,oxazolyl, oxindolyl, pyrimidinyl, phenanthridinyl, phenanthrolinyl,phenazinyl, phenothiazinyl, phenoxathinyl, phenoxazinyl, phthalazinyl,piperazinyl, piperidinyl, piperidonyl, 4-piperidonyl, piperonyl,pteridinyl, purinyl, pyranyl, pyrazinyl, pyrazolidinyl, pyrazolinyl,pyrazolyl, pyridazinyl, pyridooxazole, pyridoimidazole, pyridothiazole,pyridinyl, pyridyl, pyrimidinyl, pyrrolidinyl, pyrrolinyl, 2H-pyrrolyl,pyrrolyl, quinazolinyl, quinolinyl, 4H-quinolizinyl, quinoxalinyl,quinuclidinyl, tetrahydrofuranyl, tetrahydroisoquinolinyl,tetrahydroquinolinyl, tetrazolyl, 6H-1,2,5-thiadiazinyl,1,2,3-thiadiazolyl, 1,2,4-thiadiazolyl, 1,2,5-thiadiazolyl,1,3,4-thiadiazolyl, thianthrenyl, thiazolyl, thienyl, thienothiazolyl,thienooxazolyl, thienoimidazolyl, thiophenyl and xanthenyl.

As used herein, “tuberculosis disease”, “TB disease”, and “TB” can beused interchangeably and refer to an active infection with Mycobacteriumtuberculosis. The disease is typically initiated by the deposition of M.tuberculosis contained in aerosol droplets onto lung alveolar surfaces.If the patient's immune system cannot stop the bacteria from growing,the bacteria are able to multiply in the body and cause active diseaseand symptoms thereof. Symptoms of tuberculosis include but are notlimited to persistent cough, constant fatigue, weight loss, loss ofappetite, fever, coughing up blood, night sweats, and shortness ofbreath.

As used herein, “latent tuberculosis infection”, “latent TB infection”and “latent infection” can be used interchangeably and refer to acondition in which a patient has an inactive, asymptomatic M.tuberculosis infection. These patients typically show no symptoms andcannot spread the disease to others.

As used herein, a “therapeutically effective amount” refers to thatamount of a therapeutic agent sufficient to mediate a clinicallyrelevant elimination, reduction or amelioration of such symptoms. Aneffect is clinically relevant if its magnitude is sufficient to impactthe health or prognosis of a recipient subject. A therapeuticallyeffective amount may refer to the amount of therapeutic agent sufficientto delay or minimize the onset of disease, e.g., delay or minimize thespread of cancer. A therapeutically effective amount may also refer tothe amount of the therapeutic agent that provides a therapeutic benefitin the treatment or management of a disease.

As used herein, the term “prophylactic agent” refers to an agent thatcan be used in the prevention of a disorder or disease prior to thedetection of any symptoms of such disorder or disease. A“prophylactically effective” amount is the amount of prophylactic agentsufficient to mediate such protection. A prophylactically effectiveamount may also refer to the amount of the prophylactic agent thatprovides a prophylactic benefit in the prevention of disease.

As used herein, the term “pharmaceutically acceptable carrier”encompasses any of the standard pharmaceutical carriers, such as aphosphate buffered saline solution, water and emulsions such as anoil/water or water/oil emulsion, and various types of wetting agents.

As used herein, the terms “individual,” “host,” “subject, and “patient”are used interchangeably and refer to a mammal, including, but notlimited to, humans, rodents, such as mice and rats, and other laboratoryanimals.

The terms “treat,” “treating,” or “treatment” refer to alleviating,reducing, or inhibiting one or more symptoms or physiological aspects ofa disease, disorder, syndrome, or condition. “Treatment” as used hereincovers any treatment of a disease in a subject, and includes: (a)preventing the disease or symptom from occurring in a subject which maybe predisposed to the disease or symptom, but has not yet been diagnosedas having it; (b) inhibiting the disease symptom, i.e., arresting itsdevelopment; or (c) relieving the disease symptom, i.e., causingregression of the disease or symptom.

II. PZA Conjugates and Hybrids A. Compounds

Pyrazinamide (PZA) conjugates and hybrids are provided. One embodimentprovides a compound according to the following general structure:

wherein R₁ is alkyl, alkenyl, alkynyl, aryl, or heteroaryl, havingbetween C₁ and C₃₀ carbon atoms, and

-   -   wherein R₂ is a hydroxyl group, or carboxylic acid, nicotinic        acid or derivatives thereof.

In one embodiment, R₁ is is CH₂CH(CH₃)₂, CH(CH₃)₂, CH(CH₂CH₃)CH₃,CH₂CH₂SCH₃, CH₂Ph, or CH₂-indoyl. In another embodiment, R₂ is isoniazidor ethionamide.

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Leu-OH.

Another embodiment provides a compound according to the followingstructure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Val-OH.

Another embodiment provides a compound according to the followingstructure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Ile-OH.

Still another embodiment provides a compound according to the followingstructure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Met-OH.

Yet another embodiment provides a compound according to the followingstructure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Phe-OH.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-DL-Phe-OH.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Trp-OH.

Other embodiments provide PZA and isoniazide (INH) hybrid compounds. Oneembodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Leu-INH.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Val-INH.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Ile-INH.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Met-INH.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Phe-INH.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-DL-Phe-INH.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-Trp-INH.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as PZA-INH.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as Iso-INH.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as POA-Gly-Mor.

One embodiment provides a compound according to the following structure:

or an isolated optical isomer or an isolated enantiomer thereof. Thiscompound is also referred to as POA-L-Val-INH.

In some embodiments, other isonicotinic acid derivatives arecontemplated instead of INH. Exemplary isonicotinic acid derivativesinclude but are not limited to iproniazid, nialamide, ethionamide, anddexamethasone isonicotinate. In other embodiments, a nicotinic acidderivative is conjugated to PZA. Exemplary nicotinic acid derivativesinclude but are not limited to ethionamide.

B. Formulations and Pharmaceutical Compositions

In some embodiments the disclosed PZA conjugates and hybrids areformulated as a pharmaceutical formulation, optionally with a secondantibiotic, antifungal agent, or other treatment for tuberculosis. Otherantibiotics that are commonly used to treat bacterial infections includebut are not limited to amoxicillin, ampicillin, flucoxacillin,penicillin, pivmecillinam, tazocin, timentin, cefaclor, cefadroxil,cephalexin, cefotaxime, cefradine, ceftazimide, ceftriaxone, cefuroxime,azithromycin, clamelle, clarithromycin, erythromycin, ciprofloxacin,levofloxacin, moxifloxacin, nalidixic acid, norfloxacin, ofloxacin,demeclocycline, doxycycline, lymecycline, minocycline, oxytetracycline,tetracycline, amikacin, gentamicin, neomycin, tobramycin, septrin,sulfadiazine, aztreonam, chloramphenicol, clindamycin, clofazimine,colistin, daptomycin, fidaxomicin, fucidin, linezolid, meropenem,methenamine, metronidazole, nitrofurantoin, primazin, rifaximin,teicoplanin, tinidazole, trimethoprim, and vancomycin.

Pharmaceutical compositions including the disclosed compositions areprovided. Pharmaceutical compositions containing the disclosedcompositions can be for administration by parenteral (intramuscular,intraperitoneal, intravenous (IV) or subcutaneous injection),transdermal (either passively or using iontophoresis orelectroporation), or transmucosal (nasal, vaginal, rectal, orsublingual) routes of administration or using bioerodible inserts andcan be formulated in dosage forms appropriate for each route ofadministration.

In some in vivo approaches, the compositions disclosed herein areadministered to a subject in a therapeutically effective amount. As usedherein the term “effective amount” or “therapeutically effective amount”means a dosage sufficient to treat, inhibit, or alleviate one or moresymptoms of the disorder being treated or to otherwise provide a desiredpharmacologic and/or physiologic effect. The precise dosage will varyaccording to a variety of factors such as subject-dependent variables(e.g., age, immune system health, etc.), the disease, and the treatmentbeing effected.

For the disclosed compositions, as further studies are conducted,information will emerge regarding appropriate dosage levels fortreatment of various conditions in various patients, and the ordinaryskilled worker, considering the therapeutic context, age, and generalhealth of the recipient, will be able to ascertain proper dosing. Theselected dosage depends upon the desired therapeutic effect, on theroute of administration, and on the duration of the treatment desired.For the disclosed compositions, generally dosage levels of 0.001 to 20mg/kg of body weight daily are administered to mammals. Generally, forintravenous injection or infusion, dosage may be lower.

In certain embodiments, the composition is administered locally, forexample by injection directly into a site to be treated. Typically, theinjection causes an increased localized concentration of the compositionwhich is greater than that which can be achieved by systemicadministration. The compositions can be combined with a matrix asdescribed above to assist in creating an increased localizedconcentration of the polypeptide compositions by reducing the passivediffusion of the polypeptides out of the site to be treated.

In some embodiments, compositions disclosed herein, including thosecontaining peptides and polypeptides, are administered in an aqueoussolution, by parenteral injection. The formulation may also be in theform of a suspension or emulsion. In general, pharmaceuticalcompositions are provided including effective amounts of a peptide orpolypeptide, and optionally include pharmaceutically acceptablediluents, preservatives, solubilizers, emulsifiers, adjuvants and/orcarriers. Such compositions optionally include one or more for thefollowing: diluents, sterile water, buffered saline of various buffercontent (e.g., Tris-HCl, acetate, phosphate), pH and ionic strength; andadditives such as detergents and solubilizing agents (e.g., TWEEN 20(polysorbate-20), TWEEN 80 (polysorbate-80)), anti-oxidants (e.g.,ascorbic acid, sodium metabisulfite), and preservatives (e.g.,Thimersol, benzyl alcohol) and bulking substances (e.g., lactose,mannitol). Examples of non-aqueous solvents or vehicles are propyleneglycol, polyethylene glycol, vegetable oils, such as olive oil and cornoil, gelatin, and injectable organic esters such as ethyl oleate. Theformulations may be lyophilized and redissolved/resuspended immediatelybefore use. The formulation may be sterilized by, for example,filtration through a bacteria retaining filter, by incorporatingsterilizing agents into the compositions, by irradiating thecompositions, or by heating the compositions.

In embodiments the compositions are formulated for oral delivery. Oralsolid dosage forms are described generally in Remington's PharmaceuticalSciences, 18th Ed. 1990 (Mack Publishing Co. Easton Pa. 18042) atChapter 89. Solid dosage forms include tablets, capsules, pills, trochesor lozenges, cachets, pellets, powders, or granules or incorporation ofthe material into particulate preparations of polymeric compounds suchas polylactic acid, polyglycolic acid, etc. or into liposomes. Suchcompositions may influence the physical state, stability, rate of invivo release, and rate of in vivo clearance of the disclosed. See, e.g.,Remington's Pharmaceutical Sciences, 18th Ed. (1990, Mack PublishingCo., Easton, Pa. 18042) pages 1435-1712 which are herein incorporated byreference. The compositions may be prepared in liquid form, or may be indried powder (e.g., lyophilized) form. Liposomal or proteinoidencapsulation may be used to formulate the compositions. Liposomalencapsulation may be used and the liposomes may be derivatized withvarious polymers (e.g., U.S. Pat. No. 5,013,556). See also Marshall, K.In: Modern Pharmaceutics Edited by G. S. Banker and C. T. Rhodes Chapter10, 1979. In general, the formulation will include the peptide (orchemically modified forms thereof) and inert ingredients which protectpeptide in the stomach environment, and release of the biologicallyactive material in the intestine.

The agents can be chemically modified so that oral delivery of thederivative is efficacious. Generally, the chemical modificationcontemplated is the attachment of at least one moiety to the componentmolecule itself, where the moiety permits uptake into the blood streamfrom the stomach or intestine, or uptake directly into the intestinalmucosa. Also desired is the increase in overall stability of thecomponent or components and increase in circulation time in the body.PEGylation is an exemplary chemical modification for pharmaceuticalusage. Other moieties that may be used include: propylene glycol,copolymers of ethylene glycol and propylene glycol, carboxymethylcellulose, dextran, polyvinyl alcohol, polyvinyl pyrrolidone,polyproline, poly-1,3-dioxolane and poly-1,3,6-tioxocane [see, e.g.,Abuchowski and Davis (1981) “Soluble Polymer-Enzyme Adducts,” in Enzymesas Drugs. Hocenberg and Roberts, eds. (Wiley-Interscience: New York,N.Y.) pp. 367-383; and Newmark, et al. (1982) J. Appl. Biochem.4:185-189].

Another embodiment provides liquid dosage forms for oral administration,including pharmaceutically acceptable emulsions, solutions, suspensions,and syrups, which may contain other components including inert diluents;adjuvants such as wetting agents, emulsifying and suspending agents; andsweetening, flavoring, and perfuming agents.

Controlled release oral formulations may be desirable. The agent can beincorporated into an inert matrix which permits release by eitherdiffusion or leaching mechanisms, e.g., gums. Slowly degeneratingmatrices may also be incorporated into the formulation. Another form ofa controlled release is based on the Oros therapeutic system (AlzaCorp.), i.e., the drug is enclosed in a semipermeable membrane whichallows water to enter and push drug out through a single small openingdue to osmotic effects.

For oral formulations, the location of release may be the stomach, thesmall intestine (the duodenum, the jejunum, or the ileum), or the largeintestine. In some embodiments, the release will avoid the deleteriouseffects of the stomach environment, either by protection of the agent(or derivative) or by release of the agent (or derivative) beyond thestomach environment, such as in the intestine. To ensure full gastricresistance a coating impermeable to at least pH 5.0 is essential.Examples of the more common inert ingredients that are used as entericcoatings are cellulose acetate trimellitate (CAT),hydroxypropylmethylcellulose phthalate (HPMCP), HPMCP 50, HPMCP 55,polyvinyl acetate phthalate (PVAP), Eudragit L30D™, Aquateric™,cellulose acetate phthalate (CAP), Eudragit L™, Eudragit S™ andShellac™. These coatings may be used as mixed films.

The disclosed compositions can be applied topically. Topicaladministration does not work well for most peptide formulations,although it can be effective especially if applied to the lungs, nasal,oral (sublingual, buccal), vaginal, or rectal mucosa.

Compositions can be delivered to the lungs while inhaling and traverseacross the lung epithelial lining to the blood stream when deliveredeither as an aerosol or spray dried particles having an aerodynamicdiameter of less than about 5 microns.

A wide range of mechanical devices designed for pulmonary delivery oftherapeutic products can be used, including but not limited tonebulizers, metered dose inhalers, and powder inhalers, all of which arefamiliar to those skilled in the art. Some specific examples ofcommercially available devices are the Ultravent nebulizer (MallinckrodtInc., St. Louis, Mo.); the Acorn II nebulizer (Marquest MedicalProducts, Englewood, Colo.); the Ventolin metered dose inhaler (GlaxoInc., Research Triangle Park, N.C.); and the Spinhaler powder inhaler(Fisons Corp., Bedford, Mass.). Nektar, Alkermes and Mannkind all haveinhalable insulin powder preparations approved or in clinical trialswhere the technology could be applied to the formulations describedherein.

Formulations for administration to the mucosa will typically be spraydried drug particles, which may be incorporated into a tablet, gel,capsule, suspension or emulsion. Standard pharmaceutical excipients areavailable from any formulator.

Transdermal formulations may also be prepared. These will typically beointments, lotions, sprays, or patches, all of which can be preparedusing standard technology. Transdermal formulations may require theinclusion of penetration enhancers.

The compositions disclosed herein can also be administered in controlledrelease formulations. Controlled release polymeric devices can be madefor long term release systemically following implantation of a polymericdevice (rod, cylinder, film, disk) or injection (microparticles). Thematrix can be in the form of microparticles such as microspheres, wherethe agent is dispersed within a solid polymeric matrix or microcapsules,where the core is of a different material than the polymeric shell, andthe peptide is dispersed or suspended in the core, which may be liquidor solid in nature. Unless specifically defined herein, microparticles,microspheres, and microcapsules are used interchangeably. Alternatively,the polymer may be cast as a thin slab or film, ranging from nanometersto four centimeters, a powder produced by grinding or other standardtechniques, or even a gel such as a hydrogel.

Either non-biodegradable or biodegradable matrices can be used fordelivery of fusion polypeptides or nucleic acids encoding the fusionpolypeptides, although in some embodiments biodegradable matrices arepreferred. These may be natural or synthetic polymers, althoughsynthetic polymers are preferred in some embodiments due to the bettercharacterization of degradation and release profiles. The polymer isselected based on the period over which release is desired. In somecases linear release may be most useful, although in others a pulserelease or “bulk release” may provide more effective results. Thepolymer may be in the form of a hydrogel (typically in absorbing up toabout 90% by weight of water), and can optionally be crosslinked withmultivalent ions or polymers.

The matrices can be formed by solvent evaporation, spray drying, solventextraction and other methods known to those skilled in the art.Bioerodible microspheres can be prepared using any of the methodsdeveloped for making microspheres for drug delivery, for example, asdescribed by Mathiowitz and Langer, J. Controlled Release, 5:13-22(1987); Mathiowitz, et al., Reactive Polymers, 6:275-283 (1987); andMathiowitz, et al., J. Appl. Polymer Sci., 35:755-774 (1988).

The devices can be formulated for local release to treat the area ofimplantation or injection—which will typically deliver a dosage that ismuch less than the dosage for treatment of an entire body—or systemicdelivery. These can be implanted or injected subcutaneously, into themuscle, fat, or swallowed.

III. Methods for Treating Infections

The disclosed compounds and compositions can be used to treat bacterialinfections. One embodiment provides a method for treating a bacterialinfection in a subject in need thereof by administering to the subjectan effective amount of pharmaceutical composition containing aneffective amount of one or more of the PZA conjugates and hybrids totreat the bacterial infection.

In some embodiments, the bacterial infection is caused by one or morebacteria selected from the group consisting of Mycobacterium marinum,Mycobacterium fortuitum, Mycobacterium tuberculosis, Staphylococcusaureus, Enterococcus faecalis, Klebsiella pneumonia, Proteus vulgaris,Pseudomonas aeruginosa, and Proteus vulgaris.

In one embodiment, the subject has or is suspected of havingtuberculosis.

TB bacterial infection can be detected using the tuberculin skin test(TST) or interferon-gamma release assays (IGRAs) in combination withchest x-ray. The TST is used to determine if a person is infected withtuberculosis. If a person is infected, a delayed-type hypersensitivityreaction is detectable 2 to 8 weeks after infection. IGRAs are used todetermine if a person is infected with tuberculosis by measuring theimmune response to TB proteins in whole blood. Not everyone infectedwith TB bacteria becomes sick. Because of this, two TB-relatedconditions exist: latent TB infection and TB disease. Chest x-rays helpdifferentiate between latent TB infection and TB disease in individualswho test positive for TB infection with TST or IGRA. Patients withlatent disease do not have symptoms and they cannot spread TB bacteriato others. However, patients with latent disease must be treated toprevent the bacteria from becoming active and developing into TBdisease. Groups that have a higher risk of developing TB disease fromlatent TB infection include but are not limited to patients with HIV,diabetes, and other conditions that affect the immune system. These highrisk patients should be treated for latent infection. There are fourCDC-recommended treatment regimens for latent TB infection. Treatmentregimens for latent TB infection include but are not limited toisoniazid and rifapentine once weekly for 3 months, rifampin daily forfour months, and isoniazid daily or twice weekly for six to 9 months.

When TB bacteria become active and the immune system cannot rid the bodyof the bacteria, the patient will develop TB disease. Tuberculosis drugstarget various aspects of Mycobacterium tuberculosis biology, includinginhibition of cell wall synthesis, protein synthesis, or nucleic acidsynthesis. There are several drugs currently approved by the U.S. FDAfor treating TB including but not limited to first-line anti-TB agentssuch as isoniazid, rifampin, ethambutol, and pyrazinamide. Second-linedrugs for the treatment of tuberculosis that can be used with the PZAconjugates and hybrids include but are not limited to amikacin,kanamycin, streptomycin, cyclic peptides such as capreomycin,ethionamide, prothionamide, para-aminosalicylic acid (PAS), cycloserine,moxifloxacin, levofloxacin, and nitroimidazole. TB infection istypically treated by taking several drugs for six to nine months.Treatment regimens for treating TB disease have an intensive phase oftwo months, followed by a continuation phase of either four or sevenmonths. During the intensive phase, patients commonly receive isoniazid,rifampin, ethambutol, and pyrazinamide for 7 days per week for 56 doses,5 days per week for 40 doses, 3 times per week for 24 doses or 7 daysper week for 14 doses then twice weekly for 12 doses. During thecontinuation phase, patients typically receive isoniazid and rifampinfor 7 days per week for 126 doses, 5 days per week for 90 doses, 3 timesper week for 54 doses, or twice weekly for 36 doses. In one embodiment,patients are administered an effective amount of pharmaceuticalcomposition containing an effective amount of one or more of the PZAconjugates and hybrids for 7 days per week for 56 doses, 5 days per weekfor 40 doses, 3 times per week for 24 doses or 7 days per week for 14doses then twice weekly for 12 doses. In another embodiment, thedisclosed pharmaceutical compositions containing an effective amount ofone or more of the PZA conjugates and hybrids treat TB disease withoutthe need for a continuation phase of treatment.

In some embodiments, the subject has Multi-drug resistant (MDR) TB. MDRTB occurs when a Mycobacterium tuberculosis strain is resistant to atleast isoniazid and rifampin. In order to treat and cure MDR TB disease,patients must be given a combination of second-line drugs. Second-linedrugs may have more side-effects and the treatment must last longer thancombination treatment with first-line drugs. Exemplary treatment for MDRTB includes but is not limited to 18-24 months of treatment with five orsix drugs such as a susceptible first-line drugs plus an injectableagent, a fluoroquinolone, and other second-line drugs as needed.Extensively drug-resistant tuberculosis (XDR TB) is defined as MDR TBwith additional resistance to any fluoroquinolone and to at least one ofthree injectable anti-TB drugs (i.e., kanamycin, amikacin, orcapreomycin). In one embodiment, the disclosed pharmaceuticalcompositions containing an effective amount of one or more of the PZAconjugates and hybrids can treat MDR TB.

EXAMPLES Example 1: Synthesis of PZA Conjugates Materials and Methods:

Hybrid conjugates of pyrazinoic acid were successfully synthesized bycoupling an amino acid and then followed by the isoniazid usingbenzotriazole chemistry (FIG. 2 ). All the synthesized compounds werefully characterized by NMR and Mass spectroscopy. The retention of thechirality was studied by optical rotation and chiral HPLC of L and DLamino acid derivatives.

Results:

Benzotriazole chemistry was utilized to synthesize the desired hybridconjugates. PZA-AA-INH conjugates were successfully synthesized in goodyields (Table 1). The purity of the products was confirmed by spectralstudies. Preservation of chirality from starting material to finalproducts was validated by chiral HPLC and optical rotation.

TABLE 1 Properties of PZA-INH hybrid conjugates. Entry Compounds Yield(%) mp (° C.) 1 PZA-L-Leu-OH 77 115-117 2 PZA-L-Ile-OH 74 152-154 3PZA-L-Val-OH 72 160-162 4 PZA-L-Met-OH 68 136-138 5 PZA-L-Phe-OH 89165-167 6 PZA-DL-Phe-OH 90 155-157 7 PZA-L-Trp-OH 89 133-135 8PZA-L-Leu-INH 69 161-163 9 PZA-L-Ile-INH 82 163-165 10 PZA-L-Met-INH 79175-177 11 PZA-L-Met-INH 78 oil 12 PZA-L-Phe-INH 88 177-179 13PZA-DL-Phe-INK 80 142-144 14 PZA-L-Trp-INH 81 159-161

Example 2: Aerobic Antibacterial Properties Materials and Methods:

Antibacterial properties were investigated for the synthesized compoundsagainst a variety of Gram-positive (Staphylococcus aureus, Enterococcusfaecalis) and Gram-negative (Klebsiella pneumonia, Proteus vulgaris,Pseudomonas aeruginosa) bacteria utilizing the standard technique.

Results:

From the results obtained (Table 2) it has been noticed that most of thetested compounds (INH, PZA-INH, and Iso-INH are an exception) showpotency in sub-micromolar values (MIC=0.97−0.07 μM), higher than that ofthe standard reference used (MIC of ciprofloxacin=1.21 μM) againstEnterococcus faecalis. Similar observations were also shown for most ofthe tested compounds against Proteus vulgaris (PZA, INH, PZA-Leu-OH,PZA-DL-Phe-INH, and PZA-INH are exceptions) and Pseudomonas aeruginosa(PZA, INH, PZA-Val-OH, PZA-DL-Phe-OH, PZA- Leu-INH and PZA-DL-Phe-INH)with MIC values=0.12-0.27, 0.12-0.51 /AI, respectively relative to thestandard reference ciprofloxacin (MIC=6.04, 12.07 μM against Proteusvulgaris and Pseudomonas aeruginosa, respectively).

TABLE 2 Antimicrobial properties of the tested compounds against aerobicbacteria. Minimum inhibitory concentration (MIC), μg/ml (μM)Staphylococcus Enterococcus Klebsiella Proteus Pseudomonas EntryCompound aureas faecalis pneumonia vulgaris aeruginosa 1

 1024 (8317.43) 0.12 (0.97)   64 (519.84)   8 (64.98)   4 (32.49) 2

  64 (466.67)   16 (116.67)   8 (58.33)   64 (466.67)   64 (466.67) 3

 0.4 (1.21)  0.4 (1.21)   2 (6.04)   2 (6.04)   4 (12.07) 4

 1024 (4315.96) 0.03 (0.13)   64 (269.75)   8 (33.72) 0.03 (0.13) 5

  512 (2293.58) 0.03 (0.13) 0.03 (0.13) 0.06 (0.27)   4 (17.92) 6

  16 (67.44) 0.03 (0.13)   8 (33.72) 0.06 (0.25) 0.12 (0.51) 7

  16 (62.67) 0.03 (0.12)   64 (250.69) 0.06 (0.24) 0.12 (0.47) 8

  64 (235.92) 0.12 (0.44)   64 (235.92) 0.06 (0.22) 0.12 (0.44) 9

  16 (58.98) 0.03 (0.11)   16 (58.98) 0.06 (0.22)   16 (58.98) 10

  64 (206.24) 0.03 (0.10)   64 (206.24) 0.06 (0.19) 0.12 (0.39) 11

   2 (5.61) 0.03 (0.08)   4 (11.22) 0.06 (0.17)   64 (179.58) 12

  16 (46.73) 0.12 (0.35)   8 (23.37) 0.06 (0.18) 0.12 (0.35) 13

  16 (44.90) 0.03 (0.08)   8 (22.45) 0.06 (0.17) 0.12 (0.34) 14

  64 (170.93) 0.03 (0.08)   4 (10.68) 0.06 (0.16) 0.12 (0.32) 15

  16 (40.98) 0.12 (0.31)   8 (20.49) 0.06 (0.15) 0.12 (0.31) 16

  16 (40.98) 0.03 (0.08)   8 (20.49)   16 (40.98)   32 (81.97) 17

  16 (37.26) 0.03 (0.07)   4 (9.31) 0.06 (0.14) 0.12 (0.28) 18

   8 (32.89)   16 (65.78)   8 (32.89)   64 (263.13) 0.03 (0.12) 19

   4 (16.51)   16 (66.05)   4 (16.51) 0.03 (0.12) 0.06 (0.25)

Example 3:Anti-Tuberculosis Properties Results:

Mycobacterium marinum:

Some of the synthesized isonicotinic acid-pyrazinecarboxamide conjugateswith amino acid linker reveal high anti-mycobacterial properties againstM. marinum (about three folds potency; MIC=26.7, 25.6 mM of PZA-Met-INHand PZA-DL-Phe-INH, respectively) than the standard reference used(MIC=72.9 mM of INH). Other conjugates synthesized with potencycomparable to that of the standard reference are also revealed(MIC=56.1, 58.4, 56.1, 51.2, 46.6, 41.1 mM for PZA-Leu-INH, PZA-Val-INH,PZA- Ile-INH, PZA-Phe-INH, PZA-Trp-INH, and PZA-INH, respectively).Compounds PZA, PZA-Leu-OH, PZA-DL-Phe-OH and Iso-INH show biologicalproperties (MIC=81.2, 84.3, 73.7, 82.6 mM, respectively) close to thatof the standard reference.

Mycobacterium fortuitum:

Compound PZA-DL-Phe-INH seems superior among all the synthesized analogs(MIC=25.6 mM) with a potency about 5.6 folds than that of the standardreference (MIC=145.8 mM of INH). 2. Many of the synthesized compounds(MIC=81.2, 84.3, 56.1, 58.4, 56.1, 53.4, 51.2, 46.6, 41.1, 82.6 mM PZA,PZA-Leu-OH, PZA-Leu-INH, PZA-Val-INH, PZA-Ile-INH, PZA-Met-INH,PZA-Phe-INH, PZA-Trp-INH, PZA-INH and Iso-INH, respectively) reveal highbiological properties, about 2-3 folds than that of the standardreference.

Mycobacterium bovis:

Only compounds PZA-INH and Iso-INH (MIC=82.2, 82.6 mM, respectively)show promising antibacterial properties, about 1.8 folds lower than thatof the standard reference (MIC=145.8 mM of INH). Pyrazine-2-carboxamide(MIC=162.4 mM) reveals antibacterial properties close to the standardreference.

TABLE 3 Anti-mycobacterial properties of the tested compounds. Minimuminhibitory concentration (MIC), mg/ml (mM) Entry Compound Mycobacteriummarinum Mycobacterium fortuitum Mycobacterium bovis 1

  10 (81.2)   10 (81.2)   20 (162.4) 2

  10 (72.9)   20 (145.8)   20 (145.8) 3

  20 (84.3)   20 (84.3) >20 (>84.3) 4

>20 (>89.6) >20 (>89.6) >20 (>89.6) 5

>20 (>84.3) >20 (>84.3) >20 (>84.3) 6

>20 (>78.3) >20 (>78.3) >20 (>78.3) 7

>20 (>73.7) >20 (>73.7) >20 (>73.7) 8

  20 (73.7) >20 (>73.7) >20 (>73.7) 9

>20 (>64.5) >20 (>64.5) >20 (>64.5) 10

  20 (56.1)   20 (56.1) >20 (>56.1) 11

  20 (58.4)   20 (58.4) >20 (>58.4) 12

  20 (56.1)   20 (56.1) >20 (>56.1) 13

  10 (26.7)   20 (53.4) >20 (>53.4) 14

  20 (51.2)   20 (51.2) >20 (>51.2) 15

  10 (25.6)   10 (25.6) >20 (>51.2) 16

  20 (46.6)   20 (46.6) >20 (>46.6) 17

  10 (41.1)   10 (41.1)   20 (82.2) 18

  20 (82.6)   20 (82.6)   20 (82.6)

Example 4: ADMET Studies Methods

Discovery Studio 2.5 software was utilized for computational ADMET(absorption, distribution, metabolism, excretion, toxicity) studies.From the results obtained it has been noticed that most of the testedcompounds show optimal aqueous solubility and good to moderateintestinal absorption. Blood-brain barrier penetration (BBB) is rangingfrom low to very low level. Many of the tested compounds shownon-hepatotoxicity (Table 4). These computational observations indicatethat many of the constructed compounds are good hits to be handled bymore sophisticated biological/pharmacological studies for optimizingpromising bio-active agents.

TABLE 4 ADMET descriptor values for the tested compounds. Entry CompoundAqueous solubility ^(a) Intestinal absorption^(b) BBB^(c) PPB^(d)Hepatotoxicity^(e) 1

5 1 3 0 1 2

4 0 3 1 0 3

4 0 3 0 0 4

4 0 3 0 0 5

4 0 3 0 0 6

4 0 3 0 0 7

4 0 3 2 1 8

3 0 3 2 1 9

4 1 4 0 0 10

4 1 4 0 1 11

4 1 4 0 0 12

4 1 4 1 0 13

4 1 4 2 1 14

3 1 4 2 1 15

4 0 4 2 1 16

4 0 3 2 1 ^(a) Aqueous solubility level: 0, extremely low; 1, very low;2, low; 3, good; 4, optimal; 5, too soluble; 6, unknown. ^(b)Intestinalabsorption level: 0, good; 1, moderate; 2, poor; 3 very poor. ^(c)Bloodbrain barrier penetration (BBB) level: 0, very good; 1, high; 2, medium;3, low; 4, very low. ^(d)Plasma protein binding (PPB) level: 0, <90%;1, >90%; 2, >95%. ^(e)Hepatotoxicity level: 0, non-toxic; 1, toxic.

Example 5: 2D-QSAR Results:

Mycobacterium marinum

The two-descriptor model was determined to describe the bio-propertiesof the biologically active agents against Mycobacterium marinum (Table4). The maximum e-n attraction for bond C-N (semi-empirical descriptor)is the first descriptor governing the BMLR-QSAR model based on itst-criterion value “level of significance”=−4.762. This descriptorparticipates negatively in the 2D-QSAR model. In other words, the higherthe value of the descriptor the more anti-mycobacterial potency of thecompound as observed in the highest effective agent synthesizedPZA-Met-INH (MIC_(observed)=26.7, MIC_(estimated)=30.8 mM) relative toIso-INH (MIC_(observed)=82.6, MIC_(estimated)=82.3 mM) that possessdescriptor values of 330.7008, 329.2578, respectively (Tables 5, 6).Nuclear-electron attraction energy between two given atoms is determinedby Equation 1.

$\begin{matrix}{{{E_{ne}({AB})} = {\sum{B{\sum\mu}}}},{v\varepsilon{AP}_{\mu v}\left\langle {\mu{❘\frac{Z_{B}}{R_{iB}}❘}v} \right\rangle}} & (1)\end{matrix}$

Where A stands for a given atomic species, B another atomic species, Pμνdensity matrix elements over atomic basis {μν}, ZBcharge the of atomicnucleus B, RiB distance between the electron and atomic nucleus B, and

$\left\langle {\mu{❘\frac{Z_{B}}{R_{iB}}❘}v} \right\rangle$

is the electron-nuclear attraction integrals on atomic basis {μμ}an.

Maximum e-e repulsion for bond C—C is also a semi-empirical descriptorparticipates negatively in the BMLR-QSAR model. Electron-electronrepulsion between two given atoms can be calculated by Equation 2.

E _(ee)(AB)=Σμ,νεAΣλ,σBP _(μν) P _(λσ)

μμ|λσ

  (2)

Where A stands for a given atomic species, B another atomic species,P_(μν), P_(λσ) density matrix elements over atomic basis {μνλσ}, and

μν|λσ

is the electron repulsion integrals on atomic basis fan {an μνλσ}.

Mycobacterium fortuitum

Two semi-empirical descriptor model is observed for the biologicallyactive agents against M. fortuitum (Table 8). Both of them positivelyparticipate in the BMLR-QSAR model, i.e. the higher descriptor value thelower biological properties (Tables 6, 7). Electron-electron repulsionenergy for a given atomic species can be calculated by Equation 3.

E _(ee)(A)=ΣB≠AΣμ,νεAΣλ,σBP _(μν) P _(λσ)

μμ|λσ

  (3)

Where A stands for a given atomic species, B another atomic species,P_(μν), P_(λσ) density matrix elements over atomic basis {μνλσ}, and

μν|λσ

is the electron repulsion integrals on atomic basis {an μνλσ}.

Validation of the 2D-QSAR Models:

Due to the short training set utilized in the 2D-QSAR study, internalvalidation seems the most appropriate technique. Goodness of the QSARmodels are established by the statistical parameters (R²=0.908,R²cvOO=0.829, R²cvMO=0.861, F=39.543, s²=0.003 and R²=0.984,R²cvOO=0.962, R²cvMO=0.972, F=240.314, s²=0.001 for the BMLR-QSAR modelsof M. marinum and M. fortuitum, respectively). Estimated properties ofthe effective agents by the BMLR-QSAR models are comparable to theirobserved values (Tables 6, 7, 8, and 9; FIGS. 3-6 ) preserving theirpotency among each other and to the standard reference used.

TABLE 5 The descriptor of the BMLR-QSAR model for the tested compoundsagainst Mycobacterium marinum. Entry ID Coefficient s t Descriptor 1 074.8101 12.160 6.152 Intercept 2 D₁ −0.176724 0.037 −4.762 Max. e-nattraction for bond C—N 3 D₂ −0.113573 0.017 −6.809 Max. e-e repulsionfor bond C—C N = 11, n = 2, R² = 0.908, R²cvOO = 0.829, R²cvMO = 0.861,F = 39.543, s² = 0.003 Log(MIC, mM) = 74.8101 − (0.176724 × D₁) −(0.113573 × D₂)

TABLE 6 Observed and estimated MIC values for the tested compoundsagainst Mycobacterium marinum according to the BMLR-QSAR model. ObservedEstimated Entry Compound MIC, mM MIC, mM Error^(a) 1

81.2 86.8 −5.6 2

72.9 80.5 −7.6 3

84.3 79.8 4.5 4

56.1 46.7 9.4 5

58.4 57.4 1.0 6

56.1 52.5 3.6 7

26.7 30.8 −4.1 8

51.2 46.3 4.9 9

46.6 44.8 1.8 10

41.1 48.0 −6.9 11

82.6 82.3 0.3 ^(a)Error is the difference between the observed andestimated biologically activity (MIC) value.

TABLE 7 Molecular descriptor values of the BMLR-QSAR model for thetested compounds against Mycobacterium marinum according to theBMLR-QSAR model. Descriptors ^(a) Entry Compound D₁ D₂ 1 PZA 330.1631127.8817 2 INH 329.9877 128.4424 3 PZA-Leu-OH 330.4742 127.7163 4PZA-Leu-INH 330.664 129.4675 5 PZA-Val-INH 330.6187 128.7496 6PZA-Ile-INH 330.4774 129.3105 7 PZA-Met-INH 330.7008 131.0057 8PZA-Phe-INH 330.426 129.8765 9 PZA-Trp-INH 330.3036 130.193 10 PZA-INH330.8481 129.0796 11 Iso-INH 329.2578 129.4907 ^(a) D₁ = Max. e-nattraction for bond C—N, D₂ = Max. e-e repulsion for bond C—C.

TABLE 8 The descriptor of the BMLR-QSAR model for the tested compoundsagainst Mycobacterium fortuitum. Entry ID Coefficient s t Descriptor 1 0−2.6795 0.388 −6.913 Intercept 2 D₁ 0.0298467 0.003 11.054 Max. e-erepulsion for atom N 3 D₂ 80.0736 3.734 21.444 Avg. electroph. react.index for atom N N =11, n = 2, R² = 0.984, R²cvOO = 0.962, R²cvMO =0.972, F = 240.314, s² = 0.001 Log(MIC, mM) = −2.6795 + (0.0298467 × D₁)− (80.0736 × D₂)

TABLE 9 Observed and estimated MIC values for the tested compoundsagainst Mycobacterium fortuitum Observed Estimated Entry Compound MIC,mM MIC, mM Error^(a) 1

81.2 78.4 2.8 2

145.8 152.9 −7.1 3

84.3 81.5 2.8 4

56.1 54.3 1.8 5

58.4 55.9 2.5 6

56.1 54.0 2.1 7

53.4 57.9 −4.5 8

51.2 53.6 −2.4 9

46.6 48.2 −1.6 10

41.1 42.0 −0.9 11

82.6 79.0 3.6 ^(a)Error is the difference between the observed andestimated biologically activity (MIC) values.

TABLE 10 Molecular descriptor values of the BMLR-QSAR model for thetested compounds against Mycobacterium fortuitum according to theBMLR-QSAR model. Descriptors ^(a) Entry Compound D₁ D₂ 1 PZA 147.3560.00219 2 INH 142.5146 0.00762 3 PZA-Leu-OH 142.6322 0.00416 4PZA-Leu-INH 142.502 0.00201 5 PZA-Val-INH 142.4075 0.00221 6 PZA-Ile-INH142.064 0.00215 7 PZA-Met-INH 142.7317 0.00227 8 PZA-Phe-INH 142.34040.002 9 PZA-Trp-INH 144.0619 0.00078 10 PZA-INH 137.0116 0.00266 11Iso-INH 137.8948 0.00576 ^(a) D₁ = Max. e-e repulsion for atom N, D₂ =Avg. electroph. react. index for atom N.

Example 6: 3D-Pharmacophore Modeling Methods:

3D-Pharmacophore modeling is an important computational techniqueexplains the biological/pharmacological properties of compound(s)through alignment of the structural elements with chemical features in3D-array. The biologically active compounds were undertaken by DiscoveryStudio 2.5 software searching for the 3D-pharmacophoric modeling inwhich alignment of the synthesized conjugates describes the observedbiological properties.

Results:

Mycobacterium marinum

3D-pharmacophoric modeling of the biologically active compounds againstMycobacterium marinum reveals 3D-array of three chemical features [twohydrogen bonding acceptors (HBA-1, HBA-2) and one hydrogen bonding donor(HBD)] (FIGS. 7A-7B). Table 11 exhibits the estimated/predictedproperties of the tested compounds due to alignment in the3D-pharmacophore. From the observed data, it has been noticed that theN-2 of isonicotinic acid hydrazide is aligned with the pharmacophoricHBD in compounds PZA-Met-INH and PZA-Trp-INH, which are the mosteffective agents synthesized against M. marinum (MIC_(observed)=26.7,46.6; MIC_(estimated)=33.4, 38.1 mM for PZA-Met-INH and PZA-Trp-INH,respectively). However, slight displacement is observed for compoundsPZA-Leu-INH, PZA-Val-INH and PZA-Phe-INH which are also promising agentsrelative to the standard reference used (INH where, the N-1 ofisonicotinic acid hydrazide of these compounds is aligned with thepharmacophoric HBD (MIC_(observed)=56.1, 58.4, 51.2;MIC_(estimated)=46.9, 43.7, 39.3 mM for PZA-Leu-INH, PZA-Val-INH, andPZA-Phe-INH, respectively). Generally, estimated properties of thetested compounds are correlated with the observed observations and amongeach other preserving their potencies (FIGS. 8A-8K).

Mycobacterium fortuitum

Three chemical features [two hydrogen bonding donors (HBD-1, HBD-2) andone hydrogen bonding acceptor (HBA)] were exhibited by the3D-pharmacophore due to the tested bioactive agents againstMycobacterium fortuitum (FIGS. 9A-9B). PZA-Trp-INH, which is one of thehighest potent hits synthesized against M fortuitum reveals alignment ofisonicotinic acid hydrazide N-1 with HBD-1 (MIC_(observed)=46.6,MIC_(estimated)=44.7 mM). However, N-1 and N-2 of the hydrazide moietyof compounds PZA-Met-INH and PZA-Leu-INH are aligned with HBD-2 andHBD-1, respectively (MIC_(observed)=53.4, 56.1, MIC_(estimated)=50.6,52.7 mM for PZA-Met-INH and PZA-Leu-INH, respectively). Meanwhile, thenitrogen atom of pyrazinecarboxamide function of compounds PZA-Phe-INHand PZA-Val-INH are aligned with HBD-1 and HBD-2, respectively(MIC_(observed)=51.2, 58.4, MIC_(estimated)=48.0, 56.9 mM forPZA-Phe-INH and PZA-Val-INH, respectively) (Table 11, FIGS. 10A-10K).

From all the above 3D-pharmacophoric model observations, the alignmentof various nitrogen atoms with hydrogen bonding donor functions is themain controlling parameter revealing bio-properties. This seems a commonobservation between the two techniques utilized in the presentcomputational study (2D-QSAR and 3D-pharmacophore) where the 2D-QSARstudies reveal important descriptors dealing with nitrogen atomsgoverning bio-properties (max. e-n attraction for bond C—N for the QSARmodel of M. marinum and max. e-e repulsion for atom N, avg. electroph.react. index for atom N for the QSAR model of M. fortuitum).

TABLE 11 Estimated/predicted activity values for the tested compoundsmapped with the generated 3D-pharmacore models. MycobacteriumMycobacterium marinum fortuitum Observed Estimated Observed EstimatedEntry Compound MIC, mM MIC, mM MIC, mM MIC, mM 1 PZA 81.2 138.5 81.288.2 2 INH 72.9 77.4 145.8 96.7 3 PZA-Leu-OH 84.3 83.2 84.3 91.5 4PZA-Leu-INH 56.1 46.9 56.1 52.7 5 PZA-Val-INH 58.4 43.7 58.4 56.9 6PZA-Ile-INH 56.1 45.2 56.1 52.3 7 PZA-Met-INH 26.7 33.4 53.4 50.6 8PZA-Phe-INH 51.2 39.3 51.2 48.0 9 PZA-Trp-INH 46.6 38.1 46.6 44.7 10PZA-INH 41.1 67.4 41.1 75.7 11 Iso-INH 82.6 65.2 82.6 75.8

Example 7: Synthesis of POA-2° Amines and POA-INH Hybrid ConjugatesResults:

An efficient methodology for synthesizing various POA-2° amines andPOA-INH hybrid conjugates in high yields and purity was developed byutilizing the benzotriazolides of POA-amino acids. All the synthesizedconjugates were fully characterized by spectroscopy methods (FIG.12A-12B). The retention of the chirality was studied by optical rotationand chiral HPLC of L and DL amino acid derivatives. POA-AA-Het andPOA-AA-INH hybrid conjugates were successfully synthesized in goodyields.

While in the foregoing specification this invention has been describedin relation to certain embodiments thereof, and many details have beenput forth for the purpose of illustration, it will be apparent to thoseskilled in the art that the invention is susceptible to additionalembodiments and that certain of the details described herein can bevaried considerably without departing from the basic principles of theinvention.

All references cited herein are incorporated by reference in theirentirety. The present invention may be embodied in other specific formswithout departing from the spirit or essential attributes thereof and,accordingly, reference should be made to the appended claims, ratherthan to the foregoing specification, as indicating the scope of theinvention.

We claim:
 1. A pyrazinamide conjugate, consisting of

or an isolated optical isomer or an isolate isomer thereof.
 2. Apharmaceutical composition comprising a therapeutically effective amountthe compound of claim
 1. 3. The pharmaceutical composition of claim 2,wherein the composition is formulated for oral administration.
 4. Thepharmaceutical composition of claim 2, wherein the composition isformulated for parenteral administered composition.
 5. Thepharmaceutical composition of claim 2, further comprising apharmaceutically acceptable excipient.
 6. A method for treating asubject with a bacterial infection, comprising administering to thesubject a therapeutically effective amount of the pyrazinamide conjugateof claim
 1. 7. The method of claim 6, wherein the bacterial infection istuberculosis.
 8. The method of claim 6, wherein the bacterial infectionis caused by one or more bacteria selected from the group consisting ofMycobacterium marinum, Mycobacterium fortuitum, Mycobacteriumtuberculosis, Staphylococcus aureus, Enterococcus faecalis, Klebsiellapneumonia, Proteus vulgaris, Pseudomonas aeruginosa, and Proteusvulgaris.
 9. A method for treating a subject with a bacterial infection,comprising administering to the subject the pharmaceutical compositionof claim
 2. 10. The method of claim 9, wherein the bacterial infectionis tuberculosis.
 11. The method of claim 9, wherein the bacterialinfection is caused by one or more bacteria selected from the groupconsisting of Mycobacterium marinum, Mycobacterium fortuitum,Mycobacterium tuberculosis, Staphylococcus aureus, Enterococcusfaecalis, Klebsiella pneumonia, Proteus vulgaris, Pseudomonasaeruginosa, and Proteus vulgaris.
 12. The method of claim 9, wherein thecomposition is administered to the subject according to a regimenselected from 7 days per week for 8 weeks, 5 days per week for 8 weeks,3 times per week for 7 weeks, or 7 days per week for 2 weeks then twiceweekly for 6 weeks.
 13. The method of claim 9, wherein a secondtherapeutic is jointly administered to the subject serially or incombination or alternation with the pyrazinamide conjugate.